Tools

Available tools and plugins:

Github_IconWe are (slowly) transitioning our tools and plugins to the lab Github.
Please follow the links below for most up to date versions of each of the tools.

Where relevant please cite originating papers
For bugs/issues and queries please contact the lab here


Galene.pngPlatform: Standalone Windows and MacOS application
http://galene.flimfit.org/

Citation:
Warren SC et al. eLife (2018) PubMed


Automated ECM fibre orientation and alignment script

Platform: FIJI / ImageJ
Now available on Github

Citation:
Mayorca-Guiliani AE*, Madsen CD*, Cox TR* et al. Nature Medicine (2017) PubMed


Automated Picrosirius Red (PR) analysis of collagen I using transmitted light

Platform: FIJI / ImageJ
Download v1.11

Citation:
Vennin C et al. Nature Communications (2019) PubMed


Automated Picrosirius Red (PR) birefringence (BRF) analysis of collagen I using polarised light

Platform: FIJI / ImageJ
Now available on Github

Citation:

Vennin C et al. Nature Communications (2019) PubMed


Automated Masson’s Trichrome Analysis of collagen I/bone (blue)

Platform: FIJI / ImageJ
Download v1.03